Evidence map›Paper›PMID 23750713›Full record

ArticleThe journal of physical chemistry. B2013

Systematic improvement of a classical molecular model of water.

Lee-Ping Wang, Teresa Head-Gordon, Jay W Ponder, Pengyu Ren, John D Chodera, Peter K Eastman, Todd J Martinez, Vijay S Pande

Abstract read
In one paragraph

Article in The journal of physical chemistry. B, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 105 papers.

0numbers the graph read from it
0cells of the map it votes in
105citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

105 citing papers in PubMed.

  1. Energy landscape statistics and thermodynamics of a machine-learned model of water.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  2. Direct observation of liquid-liquid phase coexistence in deeply supercooled water using an accurate polarizable multipole model.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  3. Article
  4. Article
  5. Reversible molecular simulation for training classical and machine-learning force fields.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  6. Article
  7. Article
  8. Classical Models of Hydroxide for Proton Hopping Simulations.The journal of physical chemistry. B · 2024
    Article
  9. Article
  10. Article
  11. Article
  12. Article
  13. A Fast, Convenient, Polarizable Electrostatic Model for Molecular Dynamics.Journal of chemical theory and computation · 2024
    Article
  14. Tuning Potential Functions to Host-Guest Binding Data.Journal of chemical theory and computation · 2024
    Article
  15. Review
  16. Article
  17. Article
  18. Article
  19. Article
  20. Article

45 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors.

Lee-Ping WangDepartment of Chemistry, Stanford University, Stanford, California 94305, USA.
Teresa Head-Gordon
Jay W Ponder
Pengyu Ren
John D Chodera
Peter K Eastman
Todd J Martinez
Vijay S Pande

Funding

Physics-based Simulation of Biological Structures(RMI)U54GM072970 · NIGMS · STANFORD UNIVERSITY · PI ALTMAN, RUSS BIAGIO · 2004 to 2013
$33.5M
Topology, nucleation, and the protein folding barrierR01GM062868 · NIGMS · STANFORD UNIVERSITY · PI PANDE, VIJAY S · 2002 to 2018
$5.5M
NIGMS NIH HHS R01 GM062868NIGMS NIH HHS U54 GM072970
6 · The paper itself

Abstract

We report the iAMOEBA ("inexpensive AMOEBA") classical polarizable water model. The iAMOEBA model uses a direct approximation to describe electronic polarizability, in which the induced dipoles are determined directly from the permanent multipole electric fields and do not interact with one another. The direct approximation reduces the computational cost relative to a fully self-consistent polarizable model such as AMOEBA. The model is parameterized using ForceBalance, a systematic optimization method that simultaneously utilizes training data from experimental measurements and high-level ab initio calculations. We show that iAMOEBA is a highly accurate model for water in the solid, liquid, and gas phases, with the ability to fully capture the effects of electronic polarization and predict a comprehensive set of water properties beyond the training data set including the phase diagram. The increased accuracy of iAMOEBA over the fully polarizable AMOEBA model demonstrates ForceBalance as a method that allows the researcher to systematically improve empirical models by efficiently utilizing the available data.

Indexed as

Models, ChemicalGasesTemperatureThermodynamicsWaterGasesWater

Identifiers

PMID23750713
PMCPMC3770532

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.